RegulonDB

Gene
Name:	ybaZ
Synonym(s):	ECK0448, G6251, atl, b0454
Genome position(nucleotides):	475982 <-- 476371
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	54.1
External database links:

ASAP:	ABE-0001576
ECHOBASE:	EB3043
ECOLIHUB:	atl
OU-MICROARRAY:	b0454
STRING:	511145.b0454
COLOMBOS:	ybaZ

Product

Name:

DNA base-flipping protein

Synonym(s):

Atl, YbaZ, alkyltransferase-like protein

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

cytosol

Molecular weight:

14.45

Isoelectric point:

9.487

Motif(s):

Type	Positions	Sequence	Comment
	33 -> 112	FPQRVWQIVAAIPEGYVTTYGDVAKLAGSPRAARQVGGVLKRLPEGSTLPWHRVVNRHGTISLTGPDLQRQRQALLAEGV
	83 -> 83	W	UniProt: Does not confer alkyltransferase activity..

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		2 - information transfer --> 2.1 - DNA related --> 2.1.4 - DNA repair
Gene Ontology Terms (GO)
	cellular_component	GO:0005829 - cytosol
	molecular_function	GO:0003677 - DNA binding GO:0003824 - catalytic activity GO:0005515 - protein binding GO:0003684 - damaged DNA binding
	biological_process	GO:0006281 - DNA repair GO:0006974 - cellular response to DNA damage stimulus

Note(s):

Note(s): ...[more].

Evidence:

[EXP-IDA-PART-PURIFIED-PROTEIN] Assay of partially-purified protein
[EXP-IGI] Inferred from genetic interaction

Reference(s):

[1] Chen CS., et al., 2008
[2] Mazon G., et al., 2009
[3] Mazon G., et al., 2010
[4] Tomaszowski KH., et al., 2015

External database links:

ALPHAFOLD:

DIP:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

MODBASE:

PFAM:

PRIDE:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

ybaZ

Operon arrangement:

Transcription unit	Promoter
ybaZ

Elements in the selected gene context region unrelated to any object in RegulonDB

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	ffsp6	476288	forward	nd	[COMP-AINF]	[5]
promoter	ffsp5	476399	forward	nd	[COMP-AINF]	[5]
promoter	ffsp7	476422	forward	nd	[COMP-AINF]	[5]
promoter	TSS_610	476448	forward	nd	[RS-EPT-CBR]	[6]

Evidence
[COMP-AINF] Inferred computationally without human oversight
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Chen CS., Korobkova E., Chen H., Zhu J., Jian X., Tao SC., He C., Zhu H., 2008, A proteome chip approach reveals new DNA damage recognition activities in Escherichia coli., Nat Methods 5(1):69-74
[2] Mazon G., Philippin G., Cadet J., Gasparutto D., Fuchs RP., 2009, The alkyltransferase-like ybaZ gene product enhances nucleotide excision repair of O(6)-alkylguanine adducts in E. coli., DNA Repair (Amst) 8(6):697-703
[3] Mazon G., Philippin G., Cadet J., Gasparutto D., Modesti M., Fuchs RP., 2010, Alkyltransferase-like protein (eATL) prevents mismatch repair-mediated toxicity induced by O6-alkylguanine adducts in Escherichia coli., Proc Natl Acad Sci U S A 107(42):18050-5
[4] Tomaszowski KH., Aasland D., Margison GP., Williams E., Pinder SI., Modesti M., Fuchs RP., Kaina B., 2015, The bacterial alkyltransferase-like (eATL) protein protects mammalian cells against methylating agent-induced toxicity., DNA Repair (Amst) 28:14-20
[5] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78
[6] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.